Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Tcf7

Cell type

Cell type Class
Blood
Cell type
Gamma delta T cells
NA
NA

Attributes by original data submitter

Sample

source_name
mouse thymocytes
strain
C57BL/6
genotype
TCRbeta KO.Sox13 ECFP KI/+
cell type
sorted gd T thymocytes
chip antibody
anti-TCF1 (SantaCruz, sc-13025)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
1 million cells for TCF1 ChIPseq were sorted (gd+, CD24+ and CFPhi or CFPlo/-), crosslinked with 1% formaldehyde, sonicated, and then subjected to chromatin immunoprecipitation with anti-TCF1 antibody. 300-500 bp DNA fragments were obtained after reverse-cross linking. 1 million cells of DP were isolated from C57BL/6 thymocytes. The TCF1 ChIP DNA fragments were processed for ChIPseq with Illumina adapters and Illumina primers (Primer1.1 and Primer2.1). After adapter ligation, DNAs were PCR-amplified for 17 cycles and library fragments of 300-500 bp were extracted from an agarose gel.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
188962449
Reads aligned (%)
94.7
Duplicates removed (%)
88.1
Number of peaks
7081 (qval < 1E-05)

mm9

Number of total reads
188962449
Reads aligned (%)
94.4
Duplicates removed (%)
88.2
Number of peaks
7371 (qval < 1E-05)

Base call quality data from DBCLS SRA